High-Resolution YAC Fragmentation Map of 1q21

Lioumi, Maria; Olavesen, Mark G.; Nižetić, Dean; Ragoussis, Jiannis

doi:10.1006/geno.1998.5234

Cited by 27 publications

(26 citation statements)

References 42 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…After subtraction, only a few clones remained that could not be mapped to the YAC contig of region 1q21. Such clones were attributed to rare repetitive elements that are not contained in both of the YAC probes or might indicate chimerism of a YAC, as has been shown recently for YAC 986 e 10 that carries a rearranged centromeric arm (Lioumi et al 1998). Further misleading hybridization signals were due to chimeric cDNA sequences or to clones contaminated by others, of which ∼5% were identified each.…”

Section: Subtractive Hybridizationmentioning

confidence: 80%

“…Because region 1q21 is frequently involved in chromosomal aberrations (Hoggard et al 1995;Weterman et al 1996;Forus et al 1998), and assembly of the YAC contig had identified several rearranged YACs Lioumi et al 1998), we combined genomic and YAC restriction mapping to confirm the localization and to determine the order of the 10 newly detected EDC genes. Accordingly, 16 YACs of the established contig as well as 11 overlapping YACs (950 e 2#1 to 950 e 2#11) isolated from the unstable original culture 950 e 2, were used for construction of a SalI restriction map.…”

Section: Restriction Mapping Of the Newly Identified Edc Locimentioning

confidence: 99%

See 1 more Smart Citation

Identification of Human Epidermal Differentiation Complex (EDC)-Encoded Genes by Subtractive Hybridization of Entire YACs to a Gridded Keratinocyte cDNA Library

Marenholz¹,

Zirra²,

Fischer³

et al. 2001

Genome Res.

104

View full text Add to dashboard Cite

The epidermal differentiation complex (EDC) comprises a large number of genes that are of crucial importance for the maturation of the human epidermis. So far, 27 genes of 3 related families encoding structural as well as regulatory proteins have been mapped within a 2-Mb region on chromosome 1q21. Here we report on the identification of 10 additional EDC genes by a powerful subtractive hybridization method using entire YACs (950 e 2 and 986 e 10) to screen a gridded human keratinocyte cDNA library. Localization of the detected cDNA clones has been established on a long-range restriction map covering more than 5 Mb of this genomic region. The genes encode cytoskeletal tropomyosin TM30nm (TPM3), HS1-binding protein Hax-1 (HAX1), RNA-specific adenosine deaminase (ADAR1), the 34/67-kD laminin receptor (LAMRL6), and the 26S proteasome subunit p31 (PSMD8L), as well as five hitherto uncharacterized proteins (NICE-1, NICE-2, NICE-3, NICE-4, and NICE-5). The nucleotide sequences and putative ORFs of the EDC genes identified here revealed no homology with any of the established EDC gene families. Whereas database searches revealed that NICE-3, NICE-4, and NICE-5 were expressed in many tissues, no EST or gene-specific sequence was found for NICE-2. Expression of NICE-1 was up-regulated in differentiated keratinocytes, pointing to its relevance for the terminal differentiation of the epidermis. The newly identified EDC genes are likely to provide further insights into epidermal differentiation and they are potential candidates to be involved in skin diseases and carcinogenesis that are associated with this region of chromosome 1. Moreover, the extended integrated map of the EDC, including the polymorphic sequence tag site (STS) markers D1S1664, D1S2346, and D1S305, will serve as a valuable tool for linkage analyses.

show abstract

Section: Subtractive Hybridizationmentioning

confidence: 80%

Section: Restriction Mapping Of the Newly Identified Edc Locimentioning

confidence: 99%

Identification of Human Epidermal Differentiation Complex (EDC)-Encoded Genes by Subtractive Hybridization of Entire YACs to a Gridded Keratinocyte cDNA Library

Marenholz¹,

Zirra²,

Fischer³

et al. 2001

Genome Res.

104

View full text Add to dashboard Cite

show abstract

“…To further characterize the order and precise location of COAS1, -2 and -3, the isolated cDNA clones were hybridized to ®lters containing fragmented YACs from a 6 Mb contig covering the region of interest (Lioumi et al, 1998). The three genes were situated between the genetic markers D1S442 and WI7969.…”

Section: Physical Mapping Of the Clonesmentioning

confidence: 99%

Positional cloning identifies a novel cyclophilin as a candidate amplified oncogene in 1q21

et al. 2002

Self Cite

View full text Add to dashboard Cite

Gains of 1q21-q23 have been associated with metastasis and chemotherapy response, particularly in bladder cancer, hepatocellular carcinomas and sarcomas. By positional cloning of ampli®ed genes by yeast arti®cial chromosome-mediated cDNA capture using magnetic beads, we have identi®ed three candidate genes (COAS1, -2 and -3) in the ampli®ed region in sarcomas. COAS1 and -2 showed higher ampli®cation levels than COAS3. Most notably, ampli®cation was very common in osteosarcomas, where in particular COAS2 was highly expressed. COAS1 has multiple repeats and shows no homology to previously described genes, whereas COAS2 is a novel member of the cyclosporin-binding peptidylprolyl isomerase family, very similar to cyclophilin A. COAS2 was overexpressed almost exclusively in aggressive metastatic or chemotherapy resistant tumours. Although COAS2 was generally more ampli®ed than COAS1, it was not expressed in well-di erentiated liposarcomas, where ampli®cation of this region is very common. All three genes were found to be ampli®ed and over-expressed also in breast carcinomas. The complex nature of the 1q21-23 amplicons and close proximity of the genes make unequivocal determination of the gene responsible di cult. Quite likely, the di erent genes may give selective advantages to di erent subsets of tumours.

show abstract

“…These STS markers were derived from the CEPH mega-YAC clone, 955_e_11 that had been mapped to 1q21 (Marenholz et al, 1996;Lioumi et al, 1998). Detailed mapping of this YAC clone was previously reported, indicating that it lies within a large genomic region at 1q21 called the epidermal di erentiation complex (EDC).…”

Section: Hjtb Is Localized In Edcmentioning

confidence: 99%

JTB: A novel membrane protein gene at 1q21 rearranged in a jumping translocation

et al. 1999

View full text Add to dashboard Cite

1q21 is frequently involved in di erent types of translocation in many types of cancers. Jumping translocation (JT) is an unbalanced translocation that comprises ampli®ed chromosomal segments jumping to various telomeres. In this study, we identi®ed a novel gene human JTB (Jumping Translocation Breakpoint) at 1q21, which fused with the telomeric repeats of acceptor telomeres in a case of JT. hJTB (human JTB) encodes a trans-membrane protein that is highly conserved among divergent eukaryotic species. JT results in a hJTB truncation, which potentially produces an hJTB product devoid of the trans-membrane domain. hJTB is located in a gene-rich region at 1q21, called EDC (Epidermal Di erentiation Complex). This is the ®rst report identifying the gene involved in unbalanced translocations at 1q21.

show abstract

High-Resolution YAC Fragmentation Map of 1q21

Cited by 27 publications

References 42 publications

Identification of Human Epidermal Differentiation Complex (EDC)-Encoded Genes by Subtractive Hybridization of Entire YACs to a Gridded Keratinocyte cDNA Library

Identification of Human Epidermal Differentiation Complex (EDC)-Encoded Genes by Subtractive Hybridization of Entire YACs to a Gridded Keratinocyte cDNA Library

Positional cloning identifies a novel cyclophilin as a candidate amplified oncogene in 1q21

JTB: A novel membrane protein gene at 1q21 rearranged in a jumping translocation

Contact Info

Product

Resources

About